Beast code in Giters

A strongly opinionated, iterative, guided contig assembly pipeline. Integrates (+error-correction), bwa-mem, bedtools, and samtools. MPI and multiprocessing aware.

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uce-probe-design

Code for designing UCE probes

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cookiecutter-supermike-examl

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msatcommander-gs

A grown-up version of msatcommander for genome-scale data

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radcap

Software for processing data from RADcap

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alfred_zotquery

An Alfred workflow to interact with a user's Zotero data.

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bioconda-recipes

Conda recipes for the bioconda channel.

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cactus

Official home of genome aligner based upon notion of Cactus graphs

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cactus-prepare-parser

A quick python script to generate SLURM submission scripts from `cactus-prepare` stdout

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chopsuey

Virtual digests of DNA

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cookiecutter-supermike-exabayes

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cyverse

Various Docker Files For CyVerse Discovery Environment

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dockerfiles

Docker files that we use

BSD-3-Clause020

exa-helpers

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index-counters

Variety of Code for Counting Illumina Index Sequences

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phyluce-workflows

Snakemake workflows for phyluce tasks

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private-alleles

Compute private alleles in one population relative to another

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rhino

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sate-core

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sh_t

parallel, automated SH-testing

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singularity

Singularity Container Definition Files

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threerad

3RAD data processing

MIT020